TB-Profiler result

Run: ERR2514503
Summary

Run ID: ERR2514503

Sample name:

Date: 17-08-2022 18:22:54

Number of reads: 840359

Percentage reads mapped: 99.58

Strain: lineage4.3.3

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.99
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rpoB 761110 p.Asp435Val missense_variant 0.12 rifampicin
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
tlyA 1918160 p.Leu74Pro missense_variant 1.0 capreomycin
katG 2155168 p.Ser315Thr missense_variant 0.95 isoniazid
pncA 2289054 p.Asp63Gly missense_variant 0.97 pyrazinamide
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.22
rpoC 764931 p.Ala521Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 1.0
fbiC 1304962 p.Trp678Gly missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673627 p.Thr63Ile missense_variant 0.12
rpsA 1833366 c.-175delG upstream_gene_variant 0.11
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154686 p.Ala476Thr missense_variant 0.11
katG 2156196 c.-85C>T upstream_gene_variant 0.97
kasA 2518919 p.Gly269Ser missense_variant 0.96
folC 2746340 p.Ala420Val missense_variant 1.0
folC 2746745 p.Val285Gly missense_variant 0.15
ribD 2986827 c.-12G>A upstream_gene_variant 0.97
thyA 3073868 p.Thr202Ala missense_variant 0.97
ald 3086788 c.-32T>C upstream_gene_variant 1.0
embC 4241905 p.Phe681Leu missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0